pypi: Extractor | Projects | Ecosyste.ms: Papers

10.1186/s13072-016-0064-6

Setdb1-mediated H3K9 methylation is enriched on the inactive X and plays a role in its epigenetic silencing
Cited by: 59
Author(s): Andrew Keniry, Linden J. Gearing, Natasha Jansz, Joy Liu, Aliaksei Z. Holik, Peter Hickey, Sarah Kinkel, Darcy Moore, Kelsey Breslin, Kelan Chen, Ruijie Liu, Chris Phillips, Miha Pakusch, Christine Biben, Julie Sheridan, Benjamin T. Kile, Catherine Carmichael, Matthew E. Ritchie, Douglas J. Hilton, Marnie E. Blewitt
Software Mentions: 8
Published: over 8 years ago

10.1186/s13062-016-0110-0

Altools: a user friendly NGS data analyser
Cited by: 5
Author(s): Salvatore Camiolo, Gaurav Sablok, Andrea Porceddu
Software Mentions: 7
Published: almost 9 years ago

10.7717/peerj.1796

Taxonomic revision of the Malagasy members of theNesomyrmex angulatusspecies group using the automated morphological species delineation protocol NC-PART-clustering
Cited by: 14
Author(s): Sándor Csősz, Brian L. Fisher
Software Mentions: 6
Published: almost 9 years ago

10.1186/s12859-018-2299-7

CamurWeb: a classification software and a large knowledge base for gene expression data of cancer
Cited by: 9
Author(s): Emanuel Weitschek, Silvia Di Lauro, Eleonora Cappelli, Paola Bertolazzi, G. Felici
Software Mentions: 5
Published: about 6 years ago

10.1371/journal.pone.0010485

An Analysis of Genetic Changes during the Divergence of Drosophila Species
Cited by: 13
Author(s): Rui Sousa‐Neves, Alexandre Rosas
Software Mentions: 4
Published: over 14 years ago

10.1038/srep38046

THD-Module Extractor: An Application for CEN Module Extraction and Interesting Gene Identification for Alzheimer’s Disease
Cited by: 10
Author(s): Tulika Kakati, Hirak J. Kashyap, Dhruba K. Bhattacharyya
Software Mentions: 4
Published: about 8 years ago

10.1093/gigascience/giaa027

Canfam_GSD: De novo chromosome-length genome assembly of the German Shepherd Dog (Canis lupus familiaris) using a combination of long reads, optical mapping, and Hi-C
Cited by: 43
Author(s): Matthew A. Field, Benjamin D. Rosen, Olga Dudchenko, Eva Chan, André E. Minoche, Richard J. Edwards, Kirston Barton, Ruth J. Lyons, Daniel Enosi Tuipulotu, Vanessa M. Hayes, Arina D. Omer, Zane Colaric, Jens Keilwagen, Ksenia Skvortsova, Ozren Bogdanović, Martin A. Smith, E Aiden, Timothy P. L. Smith, Robert A. Zammit, J. William O. Ballard
Software Mentions: 4
Published: over 4 years ago

10.1186/s13148-015-0135-8

Whole-genome bisulfite sequencing of cell-free DNA identifies signature associated with metastatic breast cancer
Cited by: 68
Author(s): Christophe Legendre, Gerald C. Gooden, Kyle N. Johnson, Rae Anne Martinez, Winnie S. Liang, Bodour Salhia
Software Mentions: 3
Published: over 9 years ago

10.1186/1471-2105-10-S12-S17

Protopia: a protein-protein interaction tool
Cited by: 11
Author(s): Alejandro Real-Chicharro, I. Ruiz-Mostazo, Ismael Navas‐Delgado, Amine Kerzazi, Othmane Chniber, Francisca Sánchez‐Jiménez, Miguel Ángel Medina, José F. Aldana‐Montes
Software Mentions: 3
Published: about 15 years ago

10.1038/srep35507

Historical dimensions of population structure in a continuously distributed marine species: The case of the endemic Chilean dolphin
Cited by: 8
Author(s): María José Pérez‐Álvarez, Carlos Olavarría, Rodrigo Moraga, C. Scott Baker, Rebecca M. Hamner, Élie Poulin
Software Mentions: 3
Published: about 8 years ago

10.1186/s13040-015-0067-z

BioDB extractor: customized data extraction system for commonly used bioinformatics databases
Cited by: 2
Author(s): Rajiv Karbhal, Sangeeta Sawant, Urmila Kulkarni‐Kale
Software Mentions: 3
Published: over 9 years ago

10.1107/S0907444911054515

PDB_REDO: constructive validation, more than just looking for errors
Cited by: 188
Author(s): Robbie P. Joosten, Krista Joosten, Garib N. Murshudov, Anastassis Perrakis
Software Mentions: 2
Published: almost 13 years ago

10.1007/s12565-019-00506-1

Estimation of three-dimensional long axes of the maxillary and mandibular first molars with regression analysis
Cited by: 5
Author(s): Kazuto Terada, Takashi Kameda, Ikuo Kageyama, Makoto Sakamoto
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0237655

Development and evaluation of loop-mediated isothermal amplification for detection of Yersinia pestis in plague biological samples
Cited by: 4
Author(s): Lovasoa Nomena Randriantseheno, Anjanirina Rahantamalala, Ando Lalaniaina Randrianierenana, Minoarisoa Rajerison, Voahangy Andrianaivoarimanana
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0224070

Proteomic characterisation of the Chlamydia abortus outer membrane complex (COMC) using combined rapid monolithic column liquid chromatography and fast MS/MS scanning
Cited by: 4
Author(s): David Longbottom, Morag Livingstone, Kevin Aitchison, Lisa Imrie, Erin Manson, Nick Wheelhouse, Neil F. Inglis
Software Mentions: 2
Published: about 5 years ago

10.12688/f1000research.3-18.v2

Mutation extraction tools can be combined for robust recognition of genetic variants in the literature
Cited by: 26
Author(s): Antonio Jimeno-Yepes, Karin Verspoor
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0161963

Genetics, Gene Flow, and Glaciation: The Case of the South American Limpet Nacella mytilina
Cited by: 13
Author(s): Claudio A. González‐Wevar, Sebastián Rosenfeld, Nicolás I. Segovia, Mathias Hüne, Karin Gérard, Jaime Ojeda, Andrés Mansilla, Paul Brickle, A Mendoza Diaz, Élie Poulin
Software Mentions: 2
Published: over 8 years ago

10.1186/1476-4598-6-50

In silico gene expression analysis – an overview
Cited by: 47
Author(s): David Murray, Peter Doran, Padraic MacMathúna, Alan C. Moss
Software Mentions: 2
Published: over 17 years ago

10.1038/sdata.2018.1

A dataset of 200 structured product labels annotated for adverse drug reactions
Cited by: 38
Author(s): Dina Demner‐Fushman, Sonya E. Shooshan, Laritza Rodriguez, Alan R. Aronson, F.M. Lang, Willie J. Rogers, Kirk Roberts, Joseph M. Tonning
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0000741

Genome Dynamics of Short Oligonucleotides: The Example of Bacterial DNA Uptake Enhancing Sequences
Cited by: 15
Author(s): Mohammed Bakkali
Software Mentions: 2
Published: over 17 years ago

10.1186/1751-0473-8-4

BlaSTorage: a fast package to parse, manage and store BLAST results
Cited by: 1
Author(s): Massimiliano Orsini, Simone Carcangiu
Software Mentions: 2
Published: almost 12 years ago

10.1186/1471-2105-7-390

PET-Tool: a software suite for comprehensive processing and managing of Paired-End diTag (PET) sequence data
Cited by: 29
Author(s): Kuo Ping Chiu, Chee-Hong Wong, Qiongyu Chen, Pramila Ariyaratne, Hong Ooi, Chia‐Lin Wei, Wing-Kin Sung, Yijun Ruan
Software Mentions: 2
Published: over 18 years ago

10.3389/frobt.2020.594412

End-to-End Automated Latent Fingerprint Identification With Improved DCNN-FFT Enhancement
Cited by: 1
Author(s): Uttam U. Deshpande, V. S. Malemath, Sandeep Patil, Sushma V. Chaugule
Software Mentions: 1
Published: about 4 years ago

10.1007/s11357-018-0029-8

The association between relevant comorbidities and dementia in patients with atrial fibrillation
Cited by: 15
Author(s): Per Wändell, Axel C. Carlsson, Jan Sundquist, Kristina Sundquist
Software Mentions: 1
Published: over 6 years ago

10.1107/S0021889809008784

PDB_REDO: automated re-refinement of X-ray structure models in the PDB
Cited by: 197
Author(s): Robbie P. Joosten, Jean Salzemann, Vanessa Bloch, Heinz Stockinger, Asta Berglund, Clément E. Blanchet, Erik Bongcam‐Rudloff, Christophe Combet, Anna Luisa Costa, Gilbert Deléage, M. Diarena, R. Fabbretti, G. Fettahi, Volker Flegel, Andreas Gisel, Vinod Kasam, Tuomas Kervinen, Eija Korpelainen, Kimmo Mattila, Marco Pagni, Matthieu Reichstadt, Vincent Breton, Ian J. Tickle, Gert Vriend
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.ppat.1006051

Integrated Activity and Genetic Profiling of Secreted Peptidases in Cryptococcus neoformans Reveals an Aspartyl Peptidase Required for Low pH Survival and Virulence
Cited by: 26
Author(s): Starlynn Clarke, Phillip A. Dumesic, Christina M. Homer, Anthony J. O’Donoghue, Florencia La Greca, Lenka Pallová, Pavel Majer, Hiten D. Madhani, Charles S. Craik
Software Mentions: 1
Published: about 8 years ago

10.1038/srep44559

Lineage divergence, local adaptation across a biogeographic break, and artificial transport, shape the genetic structure in the ascidian Pyura chilensis
Cited by: 16
Author(s): Nicolás I. Segovia, Cristian Gallardo‐Escárate, Élie Poulin, Pilar A. Haye
Software Mentions: 1
Published: almost 8 years ago

10.3390/jimaging7040061

Time- and Resource-Efficient Time-to-Collision Forecasting for Indoor Pedestrian Obstacles Avoidance
Cited by: 5
Author(s): David L. Urban, Alice Caplier
Software Mentions: 1
Published: almost 4 years ago

10.1107/S0907444908037591

Re-refinement from deposited X-ray data can deliver improved models for most PDB entries
Cited by: 56
Author(s): Robbie P. Joosten, Thomas Womack, Gert Vriend, G. Bricogne
Software Mentions: 1
Published: almost 16 years ago

10.1186/s12859-016-1396-8

Microbial phenomics information extractor (MicroPIE): a natural language processing tool for the automated acquisition of prokaryotic phenotypic characters from text sources
Cited by: 13
Author(s): Jin Mao, Lisa R. Moore, Carrine E. Blank, Elvis Hsin Hui Wu, Marcia Ackerman, Sonali Sachin Ranade, Hong Cui
Software Mentions: 1
Published: about 8 years ago

10.1186/1471-2407-10-16

Stable alterations of CD44 isoform expression in prostate cancer cells decrease invasion and growth and alter ligand binding and chemosensitivity
Cited by: 22
Author(s): Kui Yang, Yaqiong Tang, Gabriel Habermehl, Kenneth A. Iczkowski
Software Mentions: 1
Published: almost 15 years ago

10.1186/1472-6947-9-S1-S3

An intelligent listening framework for capturing encounter notes from a doctor-patient dialog
Cited by: 17
Author(s): Jeffrey G. Klann, Peter Szolovits
Software Mentions: 1
Published: about 15 years ago

10.1186/1756-0500-7-379

BrassicaTED - a public database for utilization of miniature transposable elements in Brassica species
Cited by: 17
Author(s): Murukarthick Jayakodi, Sampath Perumal, Sang Choon Lee, Beom-Soon Choi, N. Senthil, Liu S, Tae-Jin Yang
Software Mentions: 1
Published: over 10 years ago

10.3390/life5031539

The Effects of Temperature and Growth Phase on the Lipidomes of Sulfolobus islandicus and Sulfolobus tokodaii
Cited by: 30
Author(s): Sara Munk Jensen, Vinnie Lund Neesgaard, Sandra Landbo Nedergaard Skjoldbjerg, Martin Brandl, Christer S. Ejsing, Alexander H. Treusch
Software Mentions: 1
Published: over 9 years ago

10.3390/microorganisms7040098

The Cano-eMLST Program: An Approach for the Calculation of Canonical Extended Multi-Locus Sequence Typing, Making Comparison of Genetic Differences Among Bunches of Bacterial Strains
Cited by: 1
Author(s): Yen‐Yi Liu, Ji-Wei Lin, Chih-Chieh Chen
Software Mentions: 1
Published: over 5 years ago

10.3390/molecules16010493

Tomato Polyphenol Oxidase B Is Spatially and Temporally Regulated during Development and in Response to Ethylene
Cited by: 26
Author(s): Sally Newman, Piyada Alisha Tantasawat, John C. Steffens
Software Mentions: 1
Published: almost 14 years ago

10.1016/j.vetpar.2016.03.008

A preliminary proteomic characterisation of extracellular vesicles released by the ovine parasitic nematode, Teladorsagia circumcincta
Cited by: 42
Author(s): Thomas Tzelos, J. B. Matthews, Amy H. Buck, Fabio Simbari, David Frew, Neil F. Inglis, Kevin McLean, Alasdair J. Nisbet, Bruce Whitelaw, David P. Knox, Tom N. McNeilly
Software Mentions: 1
Published: over 8 years ago

10.14814/phy2.12180

Database of osmoregulated proteins in mammalian cells
Cited by: 12
Author(s): Cameron R. Grady, Mark A. Knepper, Maurice B. Burg, Joan D. Ferraris
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pcbi.1002805

Chapter 3: Small Molecules and Disease
Cited by: 27
Author(s): David S. Wishart
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pcbi.1005376

Elucidation of molecular kinetic schemes from macroscopic traces using system identification
Cited by: 1
Author(s): Miguel Fribourg, Diomedes E. Logothetis, Javier González-Maeso, Stuart C. Sealfon, Belén Galocha Iragüen, Fernando Las-Heras, Vladimír Březina
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0037128

Analysis of Complete Nucleotide Sequences of 12 Gossypium Chloroplast Genomes: Origin and Evolution of Allotetraploids
Cited by: 63
Author(s): Qi Xu, Guanjun Xiong, Pengbo Li, Fei He, Yi Huang, Kunbo Wang, Zhaohu Li, Jinping Hua
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0138591

Proteomics of Aggregatibacter actinomycetemcomitans Outer Membrane Vesicles
Cited by: 48
Author(s): Thomas Kieselbach, Vincent Zijnge, Elisabeth Granström, Jan Oscarsson
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0025781

Genomotyping of Coxiella burnetii Using Microarrays Reveals a Conserved Genomotype for Hard Tick Isolates
Cited by: 17
Author(s): Quentin Leroy, Fabrice Armougom, Pascal Barbry, Didier Raoult
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0077612

Glycolytic Metabolites Are Critical Modulators of Oocyte Maturation and Viability
Cited by: 7
Author(s): Lloyd C. Berger, Andrew Wilde
Software Mentions: 1
Published: about 11 years ago

10.1038/cddis.2013.221

Signal-dependent fra-2 regulation in skeletal muscle reserve and satellite cells
Cited by: 19
Author(s): Nezeka S. Alli, Eric C. Yang, Tetsuaki Miyake, Arif Aziz, Henry Collins‐Hooper, Ketan Patel, John C. McDermott
Software Mentions: 1
Published: over 11 years ago

10.1016/j.dib.2016.12.015

Dataset of the proteome of purified outer membrane vesicles from the human pathogen Aggregatibacter actinomycetemcomintans
Cited by: 6
Author(s): Thomas Kieselbach, Jan Oscarsson
Software Mentions: 1
Published: almost 8 years ago

10.1093/database/baw031

RSIADB, a collective resource for genome and transcriptome analyses inRhizoctonia solaniAG1 IA
Cited by: 18
Author(s): Lei Chen, Peng Ai, Jinfeng Zhang, Qi Deng, Yunlong Wang, Shuangcheng Li, Jun Zhu, Ping Li, Aiping Zheng
Software Mentions: 1
Published: almost 9 years ago

10.1186/1758-5996-6-2

Effects of prescribed antithrombotics and other cardiovascular pharmacotherapies on all-cause mortality in patients with diabetes and atrial fibrillation – a cohort study from Sweden using propensity score analyses
Cited by: 7
Author(s): Per Wändell, Axel C. Carlsson, Jan Sundquist, Sven‐Erik Johansson, Matteo Bottai, Kristina Sundquist
Software Mentions: 1
Published: almost 11 years ago

10.1155/2012/278652

The Cytotoxicity Mechanism of 6-Shogaol-Treated HeLa Human Cervical Cancer Cells Revealed by Label-Free Shotgun Proteomics and Bioinformatics Analysis
Cited by: 21
Author(s): Qun Li, Yongbo Peng, Lian‐Wen Qi, Xiaolan Cheng, Xiaojun Xu, Lele Liu, E‐Hu Liu, Ping Li
Software Mentions: 1
Published: almost 13 years ago

Projects: pypi: Extractor

Papers Mentioning Extractor 49